Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Clamp

Cell type

Cell type Class
Embryo
Cell type
2-4h embryos
NA
NA

Attributes by original data submitter

Sample

source_name
embryo
developmental stage
2-4 hr old embryos
genotype
+; HisC deletion; 12xPR (VK33)
chip antibody
Rabbit anti-CLAMP (Rieder et al. 2017)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Embryos were collected, fixed in formaldehyde, and stored at -80 according to Blythe and Wieschaus, 2015, Chromatin immunoprecipitation was performed using Rabbit anti CLAMP or Rabbit IgG as described in Reider et al., 2017 Libraries were synthesized using 4ul of inputs and 36ul of each ChIP sample (Rabbit anti CLAMP or Rabbit IgG; Millipore-Sigma, 12-370) according to Blythe and Wieschaus (2015). Briefly, libraries were made using the NEBNext Ultra II DNA Library Prep Kit for Illumina (New England Biolabs), 12 samples pooled per lane, and sequenced on an Illumina HiSeq 2500 in 2×150-bp mode (Genewiz).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

dm3

Number of total reads
3204820
Reads aligned (%)
90.5
Duplicates removed (%)
27.6
Number of peaks
1681 (qval < 1E-05)

dm6

Number of total reads
3204820
Reads aligned (%)
89.9
Duplicates removed (%)
28.1
Number of peaks
1765 (qval < 1E-05)

Base call quality data from DBCLS SRA